Commit e7a60294 authored by Andreas Tille's avatar Andreas Tille

Fix edam syntax input+output is singular

parent 2c0ba5d3
......@@ -6,75 +6,75 @@ scopes:
- name: add_indels
function:
- Sequence mutation and randomisation
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: caf_to_fastq
function:
- Formatting
inputs:
input:
- data: Sequence assembly report
formats: [CAF]
outputs:
output:
- data: Sequence
formats: [FASTQ]
- name: capillary_to_pairs
function:
- Sequence file editing
inputs:
input:
- data: Sequence
formats: [FASTA]
outputs:
output:
- data: Sequence
formats: [FASTA]
- name: chunker
function:
- Splitting
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: count_sequences
function:
- Data handling
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: deinterleave
function:
- Splitting
inputs:
input:
- data: Sequence
formats: [FASTA]
outputs:
output:
- data: Sequence
formats: [FASTA]
- name: enumerate_names
function:
- Sequence file editing
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: expand_nucleotides
function:
- Sequence generation (nucleic acid)
inputs:
input:
- data: Sequence
formats:
- FASTA
- FASTQ
outputs:
output:
- data: Sequence
formats:
- FASTA
......@@ -82,21 +82,21 @@ scopes:
- name: fasta_to_fastq
function:
- Formatting
inputs:
input:
- data: Sequence
formats:
- FASTA
- qual
outputs:
output:
- data: Sequence
formats: [FASTQ]
- name: filter
function:
- Sequence file editing
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats:
- FASTA
......@@ -104,45 +104,45 @@ scopes:
- name: get_ids
function:
- ID retrieval
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: get_seq_flanking_gaps
function:
- Sequence database search
inputs:
input:
- data: Sequence
formats: [FASTA]
outputs:
output:
- data: Sequence
formats: [FASTA]
- name: interleave
function:
- Aggregation
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: make_random_contigs
function:
- Random sequence generation
outputs:
output:
- data: Sequence
formats: [FASTQ]
- name: merge
function:
- Aggregation
inputs:
input:
- data: Sequence
formats:
- FASTA
- FASTQ
outputs:
output:
- data: Sequence
formats:
- FASTA
......@@ -150,12 +150,12 @@ scopes:
- name: replace_bases
function:
- Sequence mutation and randomization
inputs:
input:
- data: Sequence
formats:
- FASTA
- FASTQ
outputs:
output:
- data: Sequence
formats:
- FASTA
......@@ -163,37 +163,37 @@ scopes:
- name: reverse_complement
function:
- Nucleic acid sequence reverse and complement
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: scaffolds_to_contigs
function:
- Sequence generation (nucleic acid)
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: search_for_seq
function:
- Sequence database search
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: sequence_trim
function:
- Sequence trimming
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats:
- FASTA
......@@ -201,12 +201,12 @@ scopes:
- name: sort_by_size
function:
- Sequence file editing
inputs:
input:
- data: Sequence
formats:
- FASTA
- FASTQ
outputs:
output:
- data: Sequence
formats:
- FASTA
......@@ -214,12 +214,12 @@ scopes:
- name: split_by_base_count
function:
- Splitting
inputs:
input:
- data: Sequence
formats:
- FASTA
- FASTQ
outputs:
output:
- data: Sequence
formats:
- FASTA
......@@ -227,12 +227,12 @@ scopes:
- name: strip_illumina_suffix
function:
- Sequence file editing
inputs:
input:
- data: Sequence
formats:
- FASTA
- FASTQ
outputs:
output:
- data: Sequence
formats:
- FASTA
......@@ -240,16 +240,16 @@ scopes:
- name: to_fake_qual
function:
- Generation
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [qual]
- name: to_fasta
function:
- Formatting
inputs:
input:
- data: Sequence
formats:
- FASTA
......@@ -258,96 +258,96 @@ scopes:
- EMBL format
- GenBank format
- PHYLIP format
outputs:
output:
- data: Sequence
formats: [FASTA]
- name: to_mira_xml
function:
- Generation
inputs:
input:
- data: Sequence
formats:
- FASTA
- FASTQ
outputs:
output:
- data: Sequence
formats:
- XML
- name: to_orfs_gff
function:
- Coding region prediction
inputs:
input:
- data: Sequence
formats:
- FASTA
- FASTQ
outputs:
output:
- data: Sequence features
formats:
- GFF3
- name: to_perfect_reads
function:
- Generation
inputs:
input:
- data: Sequence
formats:
- FASTA
- FASTQ
outputs:
output:
- data: Sequence
formats:
- FASTQ
- name: to_random_subset
function:
- Random sequence generation
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTQ]
- name: to_tiling_bam
function:
- Generation
inputs:
input:
- data: Sequence
formats: [FASTA]
outputs:
output:
- data: Alignment
formats: [BAM]
- name: translate
function:
- DNA translation
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA]
- name: trim_Ns_at_end
function:
- Sequence trimming
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: trim_contigs
function:
- Sequence trimming
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: trim_ends
function:
- Sequence trimming
inputs:
input:
- data: Sequence
formats: [FASTA, FASTQ]
outputs:
output:
- data: Sequence
formats: [FASTA, FASTQ]
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